| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017386945.1, is a part of gene, LOC108214766. |
| The genetic_marker, MK002955 K0399, is located in gene, LOC108214766. |
| Name | Description |
|---|---|
An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4. There are a few different naming schemes for this assembly. First there is the Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0 LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926. Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence. RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records. The NCBI Sequence report lists the correspondences between the various naming methods Link to the LNRQ01000000.1 master record at NCBI Raw Reads: Link to SRA accessions used for the genome assembly This genome is available in the CarrotOmics Blast Search | |
The RefSeq genome records for Daucus carota subsp. sativus were annotated by the NCBI Eukaryotic Genome Annotation Pipeline, an automated pipeline that annotates genes, transcripts and proteins on draft and finished genome assemblies. This report presents statistics on the annotation products, the input data used in the pipeline and intermediate alignment results. View the full report at https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Daucus_carota_subsp._sativus/100/ Data from this analysis can be viewed in JBrowse here. |
| Transcript Name | Identifier | Type | Location |
|---|---|---|---|
| XM_017386945.1 | XM_017386945.1 | mRNA | DCARv2_Chr3:42279566..42287723 |
TCCCATGACATTAATTTCCCAAAATATCAAAAACCCACTAAAACCCTCTT
CACTGGTAAGTGGTAACCACTCGGTCCGGGTGTTCAAGTACAATCCAGAG
TCCGAACACAGCTCGAAAATGGCGGCGCCGGCGCACCCGGTCCTAACATT
CGAACAATTCGCCAAAGTCCACAGTTTCCTACTCGCTGCTTCAGGCATCC
CACCTTGTCTATACCAACAGCTCTACGAGAAGCTCTCCTCGGAGACTTTC
GACGGCGGTGACTTCTTCCAGGTCGAGCCCGTTGATGACGGCCGACAAAG
ACGGCTCATACTCACTTCCTCGGAGTGTATGGAGAAGGAGGCTCGCGTGT
TTCTTGTTGACCATGCTTGGACTTTTCGACTCTCCGATGCCCTCAAACAG
GTCGATGAATTATGTGTTTTATGTAATTTGGATGATTGGAAGTTGTTATT
ACAACTAATTTGGATGATTGCAAGTTGTTATATGTTCTGACACGGAGAAG
TGAAGTGATTTTTGGTGCCGAAATAGGATACGAGTGCAATGCTGATGTTA
AAATAGCTATGCATTGGATTGATGCTAATTTAAGTTTTACTTAATTCGTT
GTACGGTTATGCATTCGGTTATAGTTTTGGTTTGGATTGAACATTGCGTA
AATCGTATTTTAGCTATGCATTGGACTCGCTCTGATTATGCATTGATTTG
ATCATTTCGTGAATTTGACACTATATTTTAGATATAGCACCCATTAAAGA
TTGGTGTCCTAATCATATCACCAATGCAATAATCAATATGGTTATTTCTA
GCTAGTTGGTTTTATTTTAGAATCAAGCATTGAGCGGAGTTTTATTTTGA
TACCAAAATGTTTGAGTTGAGTTTTTGTTTCAACACCAAAAGCTTTTTTT
ATTTTTTTTGTGTCTCAAAATGTAGCAAGGGCTATAGCTGTATTGACTTG
GCACTAGATTTGCTCCCAATTTAGTTTTATATGTTAGTTATCCCTGGGGA
TGGTCCCTTAAAAGTGATCGACCATCTATATGTAGTTATTTGTACCAGAT
AACTGAAAACCCTAAAAAGATTGTCTTAAGATCGTATAGAGTACATGGCT
CCTGCATTCACATAAAAAATATCGTGCTATTACTATCCACTATTAAAACC
CGCATATGGATGGTTGCTGCTTGCCAGGCACCTAGCTATCATTTGCCAAG
AATGTGGACCCTTTACCTATGGCACCAATTCTAGTTTTGCGTTGAACTTG
CTCCAAGGATATCTATATCCATATCTATATGACTATATCCGTTCATATAC
GTCCCTAGAATAGTTTAGTTGAAGTGAAATGATTGTTGTTATGATGATGA
ACTCAATTACTTAATGTATTAGCTTTCGTATCATGTCCTAGTTCAAAAGA
AGCTAATTGTGGGACCTTTTCATGTGTATGTTGTCATAGTATTTACCGCT
GGCCTTTTGTTTTTTACTTTTTCCTAGAAGTTAGTTAATCCAAAGTGATT
AACCATGATATTGAACGGACTTGCTTAGCAATTTTCCCATCCAGGACTTC
TATTTGACTGTATCTAATTCTTCCCAAGTTCTTTTACTCTGTTATTCAAG
TCTTTAATCATTCTGCTTAGGCTGACACAATATCTCTTTTATATTATCGT
TAAGGACTATATGCTTTAAATATATTTTGACATTTAAATTGCTAAACTAT
ATAGGTTAGGTTGATCTAGCATGGAGAGAGTCTTAGTGGTTCAGGTTTAT
TCATATGGCTTGATAAGTGTTCGGTTTGATATATTAATATCCGATTTGTA
TATATGCTTCAGTTGCAAGAAGTACCAGGGCTGACAGAGAGGATGGCTTC
ACTGATGTGTGTTGACATAGATATAGAATCAGGTCCAGAAGAGGAGAATG
GATCGAGGGAGGATGTTCATGCAATTATAGAGAGAGAAGTTTGCAAAGCC
AAAGATGAAGGCAGCGATACTATAAGCTGGTTGGAGCTAGATGAGCTTGC
CATTGATGATAATATGCTCCTGTCACTTGATTTGCCCAGTAAATTTCCTG
TATGTTTCTTCTATCCTTCAATCGTATTTACGAAAATGTTATACTTGTAG
GAAACATTAATTTAATGAATGGCTCTGAAATTTGGGGTGGCAATATGCTA
GCATGAGTACGTAACACTACTTTTTGGAAAAACAACTATATAAACCTGGC
TTCCCAGTCGATACAAGGAACACAGAAGTATTAAATTCAATCTGATAACG
TATTTCTTATAAAGAATTTCTCGACCTATGTCATGAAAGCCAAATTGGTA
CTCCCTCTGTCGATTATTCCGGACCTATGAAGTCAACTATTAAAAAATAT
TTATTTAATTTTTTAGAAAATAAAAAGTTACATTTTAGAATAGACTAGAT
ATACTTCTAAATTCTAATGGTATAATTTTTTTTTAATTTTTCCAATTATA
TAATACATTTAAATTTCAGTCAAAGTATAGTCAATTTGACTAGTCAAAAT
TCAAAAGAGACATGTATTATGGGACGGAGGGAGTATTAAAAATATTGTGT
ATCTATACACTGGCACAAGCTATTGAGCTAGTATTATCGTGTATCCTATA
AAGGTTTATTTGAGTATTTTGTATTACTATTTTGCAGTGTGTCATGTATT
TCTTACAAATCTTTAATTCTGTTATGATTGTCCCTATGCTCTAGAATTTG
CATGCACTTAGCCTCACTGACAACAAGCTTGAAAATGAGGAAGCCGTCGT
CCAGGAAATAACAAAACTAAAAGACCTTAGAGCTCTTTGGTTGAACAATA
ATCCAGTTTCACAAGAAAGGTCAGTTGCTACAACTGAAAATTATTACATT
GACATCATTTACTGGTCCTTGCTGAGTGAGAACTTATCTATTCTGCTTCT
AGTAATGACCGCATGATGAACACTATCCTGCGTGGTTGCCCGAGATTGGA
AATCTACAACTCTTCTTTTACTCCTAAATTCAGTGAGTGGGCGTTGGGTT
TTTGTGGAGGAATATACAGTAAAGATAATCCAGGATTCATAGAACAGACT
GATGGTTCCTTGAGAAATGTCGTCTCTCTTGATCTCTCAAATAGGTGTAT
CCACAGTCTGGCTAATAAGGTCAGATTAATTTTCCGAACTGTATGGGGTG
TTACTTTGTTTGACTCTGTTGATCAAATATATCAATAGGACATATGAAAT
ATTTTTGAAATTGTCAATTTTTATTATCAAGACAGAGTTGACGCCATTGT
ATTTATGCTGGATTGAGGATGCCATTCTATGTGGATAATTTATTTTTTCT
TTGTTTCGTAAAATTGGGCTTTTCTTATTAGAAATCGAGTAGTTGTCCGA
AGACAAATTAATACTGATTTCTTTTGTTCTGGTTTTGTTTAGGCATTTTG
TCCTCAGGAATTGCCTTCTCTTTCGTATTTAAATCTGCGAGGAAATCCGT
TAGATCAGACTTCAGTCAGTGACTTATTGCAGCTCATAAAGGCATTTGAT
TCCTTGCATGCTTTGGAGGTAGCAGCAATATTGTAGCTCCTTGTACTCCA
TTGTGAAAGAACACACATGAACCTTGTTACTGATATAATTATCCAACAGG
TTGATATTCCAGGTCCTCTTGGAGATAGTGTTACGAAAATTCTTGAGTAC
ATTCCTAAGCTCTCGTTAATAAATGGTGTGGATACATTAAAGATCCTAGA
ATCAGGAAAGTCTGTAATGGATTCAGTACTTCAACCACGTCTCCCTGATT
GGAGTGCCGAGGAACCTCTTTCTGATCGTGTTATAAATGCCATGTGGTTT
TACCTGATGAACTATAGACTGGCAGATGAGGAAAAGATTGATGAAACTTC
TGTCTGGTATGCAACACGATTGTTTTTAGTTATGACATGCTTCATTTCGT
TGTGCATCCGCAGGCTTTATACTCCAACATTTTAATTAAGATTTGTATCT
TCTATTGTATGGTTAGCTGAAACCTATATAATGTTGGTAGGACTGACGAT
GAGGAATTCTTCTTCTTAAAATAAAAGAAGGATATGAAAATGAAATCTTT
AAGCCTTCTTTGATGCCTCAAATTTATAATCAGGTAATGACATATTATAT
GACAACTGTGCCATTAATCTTTGTAAGTGGCAAATTTTTACAATTATATA
AATGCTTATTTTTAATTTTGTATAATTTAAGGGCTTGTTTTATTATTATT
ATTATTATTATTATTATTATTATCAGTATTATTTATATATTTCATGTTGC
TGTTGTGAACACCCACCTTTTTCGAGTTTCTCCTCTTTGAAATTTTTGAA
TTTTCTCCTTTTTTACAAGTTTTACTTGGGTAAGAATCATCATCTAAAGA
GAATGAGAACGTTAACGGATACATATATATCATTCTACTAGATAAACATT
GAATTTAAGTAGTCCGAAACTCTCTCTTGTTTGCTGGTTGGCCATAAACC
TTATTTTAGTAAAAGCACTGAATTTAAGAATAAAAACATGCAAATGTTTA
TGCATGGCAATTTCCCGTCCGATCTTGTCTTAGCCATCTTATAATTTATT
CTTTATGATTATTCTCTTAAAATTATATTAACCCCTACCTTCTTAAATTT
AAGTATTATCAGAACTTATGTTAAGGGAGGTGATTCTAGAGAAAATAAGC
ATTTTGTTAAAAAAGTGACATATTATTTGGATATTTATGGCTCACACTTC
TTTGTAGTAATTTTGAATCTCTGCTTTTCAGTCGGGGAAGTGAAAGAGCA
ATAATGATGACTGATGACTGAGATTTGTGATACCATATTTAGCTCAGAGT
TCGGTGCAATACTGTGCAAGCACGTCTTTTCACGAAAATACACACGATTA
CACCTTTATTTAGTTTATCCTCTTATATTTAGGACATTTTTGGCTATAAT
TTTTGTTAGGGTTCTGCTTGGGATTTATTTTGGGCTTGAACTATTGGTTT
GGTGTTGCAAGTACATGTAAGGCAGGAGACATTCCTTAGGTGGGTTTCAC
CCTTTAGAATGCAGGGTGGTTAGATATTCTAGCTCTTTACAAAAAATAGA
AGGTTATGCTCAGGGTATTATGTCCTTTGTTATGTAGTGCTTTCTTGCAC
GAGGTTTAGCAGTTCGCAAGAGAAGCTGACCATCACCACTAAAAGGTTGT
ACCTAGAGTATCCTCTTAACTACATGTTAAGAGTTGTGTCTGTTTGGTTA
AAATATTGAGCAGATCAGAGCCTTTAAGTAAAGGAGGTGGTGAAACATAT
CAACAAGCTTTCTATTGAATATGTGATATATAATGAACAATGTTACATCT
TTTGTAACCAGTTCCTTGTATGAAATATCTAATGTTACAAAATTCTTAAT
GGTGCGCCTTGCAGGTATGTGATGGATGAACTGGGTTCTGCTTTGCGTCA
CAGTGATGAGGCAAATTTTAGAGTGGCACCGTTCCTGTACATGCCAGAGG
GTACACTGAATTCAGCTTTGAGGTTATTATCTTCTCCAACCTTTCTTGGT
TTTGAAGCAGTATAACCAGGCTTTCCTGTGAATTCCATATTTTGTCACTA
AACAGATTTTTTGTAATTTCTTTTCAATTTGCTCAATTTGAAGGCAGATG
CCTCATATGCACATCTGCGTAAACTTCTCCGTATGTACTAGATGCCATGC
AGCACATGCACAAAAGTAACTCTGTGTACTAAATGCCATGCGGCGCATGC
ACAAAATCTGCAATAGTGATGTGATAAAGTACTCTTATGTATAAAAAGTT
ACTTTTACTTGTCCTCCGGTATTGAGAGAGATTTGTTCTTCATATATACT
ACTTGTGATAGATCACTTTTAAAGTATGTTTAACTAGTGCATAATTTTTC
AGCTTTTCCATATTATGGCCTACCAAGACCATTCAAAGTGGTGAAGAATG
TACTCGCGATTTCTTATATGGTATTGGGGAGGAGAAGCAACGTTCTGCTA
GACTTACTGCCTGGTTCCACACCCCTAAAAGTTATTTTGTAAATGTATAT
GTCGTTTTCTTTTTCAAACTTCTCCAACCATAACTTAATTAAGTAAAATT
TCTATCACAACATTGAAATAATTTGTTCAACTTCACAGGAATATGAGAAC
TATAGAGAAAAACTGAAATCATCAAGTTTTTCATCTCAAACCCTAAAGCC
ATCCTCAACGCGTAGCCTAGTGAGCAGTGGTGGAACTACTTTGCGTGTTT
ATACAGATATTCCACAAGTCGAAGAATTCCTGACACGTCCTGAATTCGTC
ATCAGTATGTGTTGCTAAATATACGTTTGCTTTAATAAATTGGGAAGAAT
TTAGTCTGTTTAATTATTCTGGTATTTGCTGCTACATCTGATTGAAAGTC
AAACTGATACTTCTTTTTCGTTGAATGTGTATTGCTTGTGGCATCAGATC
ATCAACTGTTTGATTTTGTTCTAACCTTTTCTATCTGCAGCCTCTGACTC
GAAGGATGCAGATATTATATGGACAGCTATGCAGGTGGATGAAGAAATGA
AGAAGGCTACAGGAATACATGACCAACAGTATATTAATCAATTCCCTTAT
GAGGCTTGTCTCGTCATGAAACATCATTTGGCTGAAACAATTCAGAAGGT
TCATAGTATGGTCATTATAATTTGTCATGGGAACAAATTCATAATCGACT
TCTTGCATTATGATTATTTCTCAGGCCACAGCTAATTCTGAAAATCATTT
CGGACAGGCACATGGATTAACTAAGTGGTTTCAGCCGACTTATAATCTTG
AAGGACAGCTAACTCCAATGATTGGAGACTATCTTGTACGAGAAGAGGAA
GGGCTTGATAACTTATGGATCTTAAAGCCCTGGAACATGGCACGAACAAT
TGATACAACGGTGACCGGAAATTTAACTGCTATTATCCGGCTCATGGAGA
CTGGCCCAAAAATTTGTCAAAAGTATATTGAGCACCCGGCTTTGTTTAAA
GGAAAGAAATTTGATCTTCGTTACATTGTGCTACTTCGCAGCTTGAACCC
ATTGGAATTATTCCTCGCAGATATTTTCTGGGTAAGAACTTTGCTTGTCT
GGTTCATTAGGCCCGAAATGAAGATAGTCGCAGAGGAACTTCTGTTACCC
TCTACTCCTTTTCAAGTGGGGGCCATTTGCATCTTTTGAGCCTTGTGTAA
ATAATTGTGTCATTTGTTCGTGCAGGTTAGATTGGCAAACAACTCGTACA
CTTTGGACAAGCATAGCCTTTATGAATATGAAACTCATTTTACTGTCATG
GTAAGTATTATGATTTAGTTATACGATATGAAAAGGGAAGGGGAGGAAGA
CACCCACTAGTGCAGAAAATGTTACGTAAATTACTTTTGCCAAGTTTATA
TGTTAATTTAATTTGTGGTCGGTAATACTTTTTGTTTTACATATTCTATA
ACATTGTGTGTGGATTCAGAATTACGGGAGGCAACTGAATCACATGAACA
CGCCAGAGTTTGTTAAAGAATTTGAGCAGGAACATCAAGGTACAGATTCC
CTGCTTTGCCCTCACCCAGTTTGTTTGCTCTTGCCTTAATGCAAGTTCCT
GTTCATGCATTTAGAATTTCTGATTAATAATTAGCAAATTTATCGTCTGT
GTTCAAGTCAATTGGTTGGATATTCACGCAAGAATTAGAGGGATGATCAA
ATCTGCTTTCGAGTCTGCGGCACTAGTGCATCCTGAAATGCACAATCCGA
TGTCTAGGGCCATGTACGGTGTGGATGTCATGCTTGACACCAATTTCCAG
CCTAAATTGCTGGAGGTATGTAATTGTCACAAATTTGTCAACTGCTTATT
TTTCTATATGGTATGATATTGGGGTAGCGTAGTAATCACATTGTCTGCAA
TCGCAGGTGACTTACTGCCCAGATTGTAATAGAGCGTGCAAGTATGATAC
CAAATCCGTACTTAGAGGTGAAACTGAAACTGTTAAAGGTCAGGACTTCT
ACAATTATGTGTTTGGTTGTCTCTTTCTTAATGAGACTGCTCATGTATCG
CAACTTTAAGTGTGCTAGAAAACATGGATCATTTGTAACAGATTGTATTG
CTAATGGTTTTAACTTGATGTTTGTACTTTGTGACAATTATAAAGACTAG
ACAAGGATATAAGGTATTAATATGAAGTATTTAGCTTATGTAGACTTGGT
TAAAATT